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Vidal-Melgosa, Silvia; Hehemann, Jan-Hendrik (2020): Polysaccharide structures in HMWDOM and POM at the North Sea detected by carbohydrate microarray analysis. PANGAEA, https://doi.org/10.1594/PANGAEA.924287, In: Vidal-Melgosa, Silvia; Sichert, Andreas; Hehemann, Jan-Hendrik (2020): Polysaccharides present in HMWDOM and POM during a microalgae bloom period in the North Sea. PANGAEA, https://doi.org/10.1594/PANGAEA.924288

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Abstract:
Here, we traced the abundance of 27 polysaccharide epitopes in dissolved and particulate organic matter along a three month diatom bloom period in the North Sea. We used a bioanalytic approach based on carbohydrate microarrays and monoclonal antibodies (mAbs).
Details describing the data:
Carbohydrate microarray data show the relative polysaccharide abundance (antibody signal intensity) detected in samples harvested during a spring phytoplankton bloom period (21 sampling dates) in the North Sea (54˚11.3'N, 7˚54.0'E). Samples include high molecular weight dissolved organic matter (HMWDOM) and particulate organic matter (POM). Polysaccharides from all samples were sequentially extracted with the solvents H2O, 50 mM EDTA pH 7.5 and 4 M NaOH with 0.1% w/v NaBH4. A library of identical microarrays was created, each populated with the same time-series of extracted polysaccharides. These microarrays were then individually incubated with polysaccharide-specific mAbs or carbohydrate binding modules (CBMs) as probes, which specifically bind to a single polysaccharide epitope. The binding of probes to polysaccharide epitopes on the microarrays was detected using a secondary antibody coupled to alkaline phosphatase, which converts its substrate into a coloured product, the amount of which correlates with polysaccharide concentration. Antibody signal intensity was quantified and the highest signal value in the data set for HMWDOM and for POM was set to 100 and all other values were normalised accordingly. The temporal dynamics but not the absolute number should be compared between HMWDOM and POM pools as they required independent normalisation since their sampling was different. A cut-off of 5 arbitrary units was applied and all probe profiles where in at least one date an antibody positive signal (value ≥ 5) was detected are included in the data set. The epitope recognised by each probe is shown at the top of each column and the name of the corresponding mAb or CBM is depicted in parentheses. Size fractions correspond to: POM 10 µm, over 10 µm; POM 3 µm, between 10 and 3 µm; POM 0.2 µm, between 3 and 0.2 µm; HMWDOM, between 0.2 µm and 1 kDa. HG, homogalacturonan; DE, degree of esterification; AGP, arabinogalactan protein; GlcA, glucuronic acid. This microarray data set reveals the temporal dynamics of 27 polysaccharide epitopes in HMWDOM and POM.
Keyword(s):
Aggregation; Carbohydrate microarrays; Carbohydrates; Diatom blooms; Diatoms; FCSP; Fucoidan; Marine particles; Microalgae; North Sea; Polysaccharides; Transparent exopolymer particles
Related to:
Vidal-Melgosa, Silvia; Sichert, Andreas; Francis, T Ben; Bartosik, Daniel; Niggemann, Jutta; Wichels, Antje; Willats, William G T; Fuchs, Bernhard M; Teeling, Hanno; Becher, Dörte; Schweder, Thomas; Amann, Rudolf; Hehemann, Jan-Hendrik (2021): Diatom fucan polysaccharide precipitates carbon during algal blooms. Nature Communications, 12(1), https://doi.org/10.1038/s41467-021-21009-6
Coverage:
Latitude: 54.188330 * Longitude: 7.900000
Date/Time Start: 2016-03-15T00:00:00 * Date/Time End: 2016-05-26T00:00:00
Minimum Elevation: -10.0 m * Maximum Elevation: -10.0 m
Event(s):
HelgolandRoads (Kabeltonne) * Latitude: 54.188330 * Longitude: 7.900000 * Elevation: -10.0 m * Location: German Bight, North Sea * Campaign: HelgolandRoadsTimeseries * Basis: Meeresstation Helgoland * Method/Device: Monitoring (MON)
Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
1MaterialMaterialVidal-Melgosa, SilviaPool + Size
2DATE/TIMEDate/TimeVidal-Melgosa, SilviaGeocode
3TreatmentTreatVidal-Melgosa, SilviaExtraxction
4Fraction, descriptionFractionVidal-Melgosa, Silvia
5SizeSizeµmVidal-Melgosa, SilviaSize fraction
6Homogalacturonan with a low degree of esterificationHG with a low DEVidal-Melgosa, SilviaJIM5
7Homogalacturonan partially methylesterified/no esterHG part methylesterif/no esterVidal-Melgosa, SilviaLM18
8Homogalacturonan partially methylesterified/no esterHG part methylesterif/no esterVidal-Melgosa, SilviaLM19
9Non-blockwise partially methylesterified homogalacturonanNon-blockw part methylesterif HGVidal-Melgosa, SilviaLM7
10Calcium cross-linked homogalacturonanCa cross-linked HGVidal-Melgosa, Silvia2F4
11Rhamnogalacturonan I backboneRGI backboneVidal-Melgosa, SilviaINRA-RU1
12β-1,4-galactanβ-1,4-galactanVidal-Melgosa, SilviaLM5
13α-1,5-arabinanα-1,5-arabinanVidal-Melgosa, SilviaLM6
14β-1,4-(galacto)(gluco)mannanHeteromannanVidal-Melgosa, SilviaLM21
15β-1,4-(galacto)(gluco)mannanHeteromannanVidal-Melgosa, SilviaCBM27
16β-1,4-(galacto)(gluco)mannanHeteromannanVidal-Melgosa, SilviaBS-400-4
17β-1,3-glucanβ-1,3-glucanVidal-Melgosa, SilviaBS-400-2
18β-1,3;1,4-glucanβ-1,3;1,4-glucanVidal-Melgosa, SilviaBS-400-3
19XyloglucanXyloglucanVidal-Melgosa, SilviaLM25
20β-1,4-xylanβ-1,4-xylanVidal-Melgosa, SilviaLM10
21Xylosyl residuesXylosyl residuesVidal-Melgosa, SilviaLM23
22GlucuronoxylanGlucuronoxylanVidal-Melgosa, SilviaINRA-UX1
23CelluloseCelluloseVidal-Melgosa, SilviaCBM3a
24CelluloseCelluloseVidal-Melgosa, SilviaCBM4-1
25Arabinogalactan protein glycanAGP glycanVidal-Melgosa, SilviaJIM13
26β-linked GlcA in arabinogalactan proteinβ-linked GlcA in AGPVidal-Melgosa, SilviaLM2
27GlcA in arabinogalactan proteinGlcA in AGPVidal-Melgosa, SilviaLM14
28Arabinogalactan protein glycanAGP glycanVidal-Melgosa, SilviaMAC207
29FucanFucanVidal-Melgosa, SilviaBAM1
30FucanFucanVidal-Melgosa, SilviaBAM2
31FucanFucanVidal-Melgosa, SilviaBAM3
32FucanFucanVidal-Melgosa, SilviaBAM4
Size:
7749 data points

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